data_6WKF # _model_server_result.job_id RC1Dz5QBHSmgO8iubpd3vg _model_server_result.datetime_utc '2024-11-07 11:28:35' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6wkf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 6WKF # _exptl.entry_id 6WKF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 418.307 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2E,6E)-12-fluoro-11-(fluoromethyl)-3,7-dimethyldodeca-2,6,10-trien-1-yl trihydrogen diphosphate' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 6WKF _cell.length_a 183.267 _cell.length_b 183.267 _cell.length_c 56.728 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WKF _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D 1 1 B,E 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 128 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 128 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 136 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 136 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.025 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C15 H26 F2 O7 P2' _chem_comp.formula_weight 418.307 _chem_comp.id FDF _chem_comp.mon_nstd_flag . _chem_comp.name '(2E,6E)-12-fluoro-11-(fluoromethyl)-3,7-dimethyldodeca-2,6,10-trien-1-yl trihydrogen diphosphate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O2A PA FDF doub 83 n n O3A PA FDF sing 84 n n PA O1A FDF sing 85 n n PA O1 FDF sing 86 n n O2B PB FDF doub 87 n n O1B PB FDF sing 88 n n O3B PB FDF sing 89 n n PB O3A FDF sing 90 n n C1 O1 FDF sing 91 n n C1 C2 FDF sing 92 n n C1 H1 FDF sing 93 e n C1 H1A FDF sing 94 n n O1A HO1A FDF sing 95 n n O1B HO1B FDF sing 96 n n C2 C3 FDF doub 97 n n C2 H2 FDF sing 98 n n C3 C4 FDF sing 99 n n C3 C5 FDF sing 100 n n O3B HO3B FDF sing 101 n n C4 H4 FDF sing 102 n n C4 H4A FDF sing 103 n n C4 H4B FDF sing 104 n n C6 C5 FDF sing 105 n n C5 H5 FDF sing 106 n n C5 H5A FDF sing 107 n n C7 C6 FDF sing 108 n n C6 H6 FDF sing 109 n n C6 H6A FDF sing 110 n n C8 C7 FDF doub 111 n n C7 H7 FDF sing 112 e n C9 C8 FDF sing 113 n n C8 C10 FDF sing 114 n n C11 C9 FDF sing 115 n n C9 H9 FDF sing 116 n n C9 H9A FDF sing 117 n n C10 H10 FDF sing 118 n n C10 H10A FDF sing 119 n n C10 H10B FDF sing 120 n n C11 C12 FDF sing 121 n n C11 H11 FDF sing 122 n n C11 H11A FDF sing 123 n n C13 C12 FDF doub 124 n n C12 H12 FDF sing 125 n n C15 C13 FDF sing 126 n n C13 C14 FDF sing 127 n n F2 C14 FDF sing 128 n n C14 H14 FDF sing 129 n n C14 H14A FDF sing 130 n n C15 F1 FDF sing 131 n n C15 H15 FDF sing 132 n n C15 H15A FDF sing 133 n n # _atom_sites.entry_id 6WKF _atom_sites.fract_transf_matrix[1][1] 0.005457 _atom_sites.fract_transf_matrix[1][2] 0.00315 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006301 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.017628 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 FDF A 1 401 401 FDF DFF . D 3 HOH A 1 501 22 HOH HOH . D 3 HOH A 2 502 43 HOH HOH . D 3 HOH A 3 503 70 HOH HOH . D 3 HOH A 4 504 35 HOH HOH . D 3 HOH A 5 505 7 HOH HOH . D 3 HOH A 6 506 51 HOH HOH . D 3 HOH A 7 507 9 HOH HOH . D 3 HOH A 8 508 68 HOH HOH . D 3 HOH A 9 509 1 HOH HOH . D 3 HOH A 10 510 67 HOH HOH . D 3 HOH A 11 511 36 HOH HOH . D 3 HOH A 12 512 19 HOH HOH . D 3 HOH A 13 513 47 HOH HOH . D 3 HOH A 14 514 8 HOH HOH . D 3 HOH A 15 515 62 HOH HOH . D 3 HOH A 16 516 94 HOH HOH . D 3 HOH A 17 517 30 HOH HOH . D 3 HOH A 18 518 53 HOH HOH . D 3 HOH A 19 519 27 HOH HOH . D 3 HOH A 20 520 31 HOH HOH . D 3 HOH A 21 521 49 HOH HOH . D 3 HOH A 22 522 13 HOH HOH . D 3 HOH A 23 523 17 HOH HOH . D 3 HOH A 24 524 54 HOH HOH . D 3 HOH A 25 525 95 HOH HOH . D 3 HOH A 26 526 50 HOH HOH . D 3 HOH A 27 527 4 HOH HOH . D 3 HOH A 28 528 42 HOH HOH . D 3 HOH A 29 529 18 HOH HOH . D 3 HOH A 30 530 26 HOH HOH . D 3 HOH A 31 531 5 HOH HOH . D 3 HOH A 32 532 46 HOH HOH . D 3 HOH A 33 533 21 HOH HOH . D 3 HOH A 34 534 25 HOH HOH . D 3 HOH A 35 535 52 HOH HOH . D 3 HOH A 36 536 28 HOH HOH . D 3 HOH A 37 537 3 HOH HOH . D 3 HOH A 38 538 34 HOH HOH . D 3 HOH A 39 539 20 HOH HOH . D 3 HOH A 40 540 6 HOH HOH . D 3 HOH A 41 541 32 HOH HOH . D 3 HOH A 42 542 39 HOH HOH . D 3 HOH A 43 543 56 HOH HOH . D 3 HOH A 44 544 38 HOH HOH . D 3 HOH A 45 545 61 HOH HOH . D 3 HOH A 46 546 14 HOH HOH . D 3 HOH A 47 547 15 HOH HOH . D 3 HOH A 48 548 74 HOH HOH . D 3 HOH A 49 549 48 HOH HOH . D 3 HOH A 50 550 33 HOH HOH . D 3 HOH A 51 551 11 HOH HOH . D 3 HOH A 52 552 64 HOH HOH . D 3 HOH A 53 553 75 HOH HOH . D 3 HOH A 54 554 10 HOH HOH . D 3 HOH A 55 555 72 HOH HOH . D 3 HOH A 56 556 65 HOH HOH . D 3 HOH A 57 557 44 HOH HOH . D 3 HOH A 58 558 73 HOH HOH . D 3 HOH A 59 559 69 HOH HOH . D 3 HOH A 60 560 60 HOH HOH . D 3 HOH A 61 561 40 HOH HOH . D 3 HOH A 62 562 76 HOH HOH . D 3 HOH A 63 563 45 HOH HOH . D 3 HOH A 64 564 59 HOH HOH . D 3 HOH A 65 565 96 HOH HOH . D 3 HOH A 66 566 71 HOH HOH . D 3 HOH A 67 567 63 HOH HOH . D 3 HOH A 68 568 97 HOH HOH . D 3 HOH A 69 569 41 HOH HOH . D 3 HOH A 70 570 55 HOH HOH . E 3 HOH B 1 401 82 HOH HOH . E 3 HOH B 2 402 88 HOH HOH . E 3 HOH B 3 403 87 HOH HOH . E 3 HOH B 4 404 29 HOH HOH . E 3 HOH B 5 405 78 HOH HOH . E 3 HOH B 6 406 2 HOH HOH . E 3 HOH B 7 407 86 HOH HOH . E 3 HOH B 8 408 81 HOH HOH . E 3 HOH B 9 409 12 HOH HOH . E 3 HOH B 10 410 23 HOH HOH . E 3 HOH B 11 411 84 HOH HOH . E 3 HOH B 12 412 16 HOH HOH . E 3 HOH B 13 413 77 HOH HOH . E 3 HOH B 14 414 93 HOH HOH . E 3 HOH B 15 415 37 HOH HOH . E 3 HOH B 16 416 80 HOH HOH . E 3 HOH B 17 417 24 HOH HOH . E 3 HOH B 18 418 92 HOH HOH . E 3 HOH B 19 419 57 HOH HOH . E 3 HOH B 20 420 79 HOH HOH . E 3 HOH B 21 421 89 HOH HOH . E 3 HOH B 22 422 58 HOH HOH . E 3 HOH B 23 423 91 HOH HOH . E 3 HOH B 24 424 83 HOH HOH . E 3 HOH B 25 425 66 HOH HOH . E 3 HOH B 26 426 90 HOH HOH . E 3 HOH B 27 427 85 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P PA FDF . . . C 2 -51.231 61.426 -3.697 1 121.32 ? PA FDF 401 A 1 HETATM 2 P PB FDF . . . C 2 -48.959 62.47 -2.35 1 125.95 ? PB FDF 401 A 1 HETATM 3 C C1 FDF . . . C 2 -50.599 63.187 -5.548 1 97.4 ? C1 FDF 401 A 1 HETATM 4 O O1 FDF . . . C 2 -50.684 61.809 -5.173 1 106.06 ? O1 FDF 401 A 1 HETATM 5 O O1A FDF . . . C 2 -50.878 59.982 -3.414 1 112.03 ? O1A FDF 401 A 1 HETATM 6 O O1B FDF . . . C 2 -48.668 62.39 -0.868 1 124.44 ? O1B FDF 401 A 1 HETATM 7 C C2 FDF . . . C 2 -50.238 63.399 -7.011 1 94.85 ? C2 FDF 401 A 1 HETATM 8 O O2A FDF . . . C 2 -52.735 61.596 -3.67 1 98.97 ? O2A FDF 401 A 1 HETATM 9 O O2B FDF . . . C 2 -48.472 63.797 -2.889 1 110.65 ? O2B FDF 401 A 1 HETATM 10 C C3 FDF . . . C 2 -49.413 64.392 -7.435 1 86.76 ? C3 FDF 401 A 1 HETATM 11 O O3A FDF . . . C 2 -50.56 62.362 -2.562 1 110.42 ? O3A FDF 401 A 1 HETATM 12 O O3B FDF . . . C 2 -48.267 61.332 -3.067 1 111.37 ? O3B FDF 401 A 1 HETATM 13 C C4 FDF . . . C 2 -48.813 65.342 -6.412 1 86.51 ? C4 FDF 401 A 1 HETATM 14 C C5 FDF . . . C 2 -49.147 64.472 -8.941 1 89.39 ? C5 FDF 401 A 1 HETATM 15 C C6 FDF . . . C 2 -49.446 65.841 -9.553 1 76.09 ? C6 FDF 401 A 1 HETATM 16 C C7 FDF . . . C 2 -50.825 66.356 -9.188 1 76.98 ? C7 FDF 401 A 1 HETATM 17 C C8 FDF . . . C 2 -51.931 66.116 -9.94 1 79.54 ? C8 FDF 401 A 1 HETATM 18 C C9 FDF . . . C 2 -53.227 66.707 -9.405 1 73.79 ? C9 FDF 401 A 1 HETATM 19 C C10 FDF . . . C 2 -51.846 65.299 -11.222 1 74.35 ? C10 FDF 401 A 1 HETATM 20 C C11 FDF . . . C 2 -53.968 65.784 -8.438 1 72.83 ? C11 FDF 401 A 1 HETATM 21 C C12 FDF . . . C 2 -53.458 65.938 -7.025 1 77.05 ? C12 FDF 401 A 1 HETATM 22 C C13 FDF . . . C 2 -53.843 65.124 -6.019 1 79.03 ? C13 FDF 401 A 1 HETATM 23 C C14 FDF . . . C 2 -53.303 65.328 -4.614 1 73.47 ? C14 FDF 401 A 1 HETATM 24 C C15 FDF . . . C 2 -54.823 64.013 -6.361 1 82.15 ? C15 FDF 401 A 1 HETATM 25 F F1 FDF . . . C 2 -55.641 63.656 -5.317 1 78.65 ? F1 FDF 401 A 1 HETATM 26 F F2 FDF . . . C 2 -53.7 64.335 -3.761 1 81.38 ? F2 FDF 401 A 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 352 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 26 #